WoS İndeksli Yayınlar Koleksiyonu

Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/394

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Author: search.filters.author.Bakir-Güngör, BurcuSubject: search.filters.subject.Proteins

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  • Conference Object
    Comparison of Disease Specific Sub-Network Identification Programs
    (Institute of Electrical and Electronics Engineers Inc., 2018-09) Dedeturk, Beyhan Adanur; Bakir-Güngör, Burcu; Adanur, Beyhun; Gungor, Burcu Bakir
    Active sub-network search aims to identify a group of interconnected genes in a protein-protein interaction network that contains most of the disease-associated genes. In recent years, to address active sub-network search problem, various algorithms and programs are developed. In this study, performances of disease specific sub-network identification programs are compared. The same input dataset is run in jActiveModules, ActiveSubnetworkGA, CytoHubba, ClusterViz, MCODE, CytoMOBAS, PathFindR, PINBPA and PEWCC programs. Then, functional enrichment analysis is applied on obtained sub-networks. Finally, they are compared according to the results of GO Enrichment Analysis. In addition to these, work performances, features and requirements of programs are compared. © 2019 Elsevier B.V., All rights reserved.
  • Conference Object
    Citation - Scopus: 1
    The Relationship Between PAPP-A Levels, Maternal Characteristics, Gestational Diabetes and Other Biochemical Markers of the Aneuploidy Screening
    (Institute of Electrical and Electronics Engineers Inc., 2018-09) Uzut, Ömmu Gülsüm; Kaymakçalan, Hande; Härkönen, Juho; Bakir-Güngör, Burcu; Celebiler, Hande Kaymakcalan
    First trimester aneuploidy screening is routinely used in pregnancy follow-ups. In this screening, free β-hCG and pregnancy-associated plasma protein A (PAPP-A) levels in the blood of the pregnant woman are measured. The aim of this study is to investigate the relationship between PAPP-A levels, maternal characteristics, diabetes, ultrasound measurements of the fetus and other biochemical markers of the aneuploidy screening. In this study, we used the dataset of 12 428 pregnant women, who are followed by some of our researchers at the Prenatal Unit of Yale University Hospital in USA. The correlation of free-β-hCG, PAPP-A and Down syndrome risk with thyroid stimulating hormone (TSH), glucose and hematocrit was analyzed. A statistically significant correlation (p=0.0005) was found between the PAPP-A levels in the group of diabetic pregnants and PAPP-A levels in non-diabetic pregnant group. Detailed studies on the effect of PAPP-A on insulin growth factor could make it possible to use PAPP-A levels to predict gestational diabetes. © 2019 Elsevier B.V., All rights reserved.
  • Conference Object
    Hepatoselüler Karsinom Oluşumunda Etkili Moleküler Mekanizmaların İn Siliko Yöntemlerle Araştırılması
    (Institute of Electrical and Electronics Engineers Inc., 2020-09) Doǧan, Refika Sultan; Saka, Samed; Bakir-Güngör, Burcu; Gungor, Burcu Bakir
    Hepatocellular carcinoma (HCC) is the most common cause of cancer-related death in the world. The molecular changes in the organism during the development of HCC are not fully understood. The aim of the present study is to contribute to the identification of critical genes and pathways associated with HCC via integrating various bioinformatics methods. In this study, experiments were conducted on gene expression data of 14 HCC tissues and noncancerous control tissues. A total of 1229 genes, which show a statistically significant change between the groups, were identified. Among these, 681 genes were upregulated and 548 genes were downregulated. Via mapping the detected genes into protein protein interaction networks, active subnetwork search, subnetwork topological analysis and functional enrichment analyses were carried out. The interactions between the molecular pathways affected by HCC were also presented. © 2020 Elsevier B.V., All rights reserved.
  • Conference Object
    Papiller Tiroid Karsinom Oluşumunda Etkili Moleküler Mekanizmaların İn Siliko Yöntemlerle Tespit Edilmesi
    (Institute of Electrical and Electronics Engineers Inc., 2019-04) Ersöz, Nur Sebnem; Guzel, Yasin; Bakir-Güngör, Burcu
    Representing approximately 70% to 80% of thyroid cancers, papillary thyroid cancer (PTC) is the most common type of thyroid cancers. PTC is seen in all age groups, but it is seen more frequently in women than in men. Detection of biomarker proteins of papillary thyroid cancinoma plays an important role in the diagnosis of the disease. In this study, we aim to find target genes and pathways that are associated with papillar thyroid carcinoma, by integrating different bioinformatics methods. For this purpose, usingin-silico methodologies, candidate genes and pathways that could explain disease development mechanisms are identified. Throughout this study, firstly we identified differentially expressed genes as the amount of their protein product differ between patient and healthy groups. Secondly, by using active subnetworks search algorithms, topologic analyses and functional enrichment tests, candidate proteins,which could be thought as PTC biomarkers, and affected pathways are identified. © 2020 Elsevier B.V., All rights reserved.